Fix installation in examples
Updated ontology, profiles, examples; added nex examples

* Removed workflow parts from ontology as they are never used
* Changed EnvironmentType to owl subclasses of Environment
* Added some more environments
* Changed Dependency name to skos:prefLabel
* Changed portTypes from from/to to source/target
* Changed other individuals corresponding to previous point
* Updated examples
* Added new CC example
* Added property QA example
* Added executable plan example